Dataset and Motifs High-scoring Sequences Motif Diagrams Annotated Sequences Debugging Information


MAST - Motif Alignment and Search Tool

MAST version 3.0 (Release date: 2001/03/01 11:41:04)

For further information on how to interpret these results or to get a copy of the MAST software please access http://meme.sdsc.edu.


REFERENCE

If you use this program in your research, please cite:

Timothy L. Bailey and Michael Gribskov, "Combining evidence using p-values: application to sequence homology searches", Bioinformatics, 14(48-54), 1998.


DATABASE AND MOTIFS

	DATABASE farntrans5.s (peptide)
	Last updated on Thu Mar  1 08:28:38 2001
	Database contains 5 sequences, 1900 residues

	MOTIFS meme.farntrans5.oops.4.sunsparcsolaris.html (peptide)
	MOTIF WIDTH BEST POSSIBLE MATCH
	----- ----- -------------------
	  1    32   QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
	  2    22   CQDEETGGFSDKPGNMVDFYHT
	  3    16   EAHAGYTFCATAALAI

	PAIRWISE MOTIF CORRELATIONS:
	MOTIF     1     2
	----- ----- -----
	   2   0.46
	   3   0.47  0.18
	No overly similar pairs (correlation > 0.60) found.

	Random model letter frequencies (from non-redundant database):
	A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058 
	L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064 
	W 0.013 Y 0.033 


SECTION I: HIGH-SCORING SEQUENCES

LinksSequence NameDescriptionE-valueLength
D A ?
RATRABGERB Rat rab geranylgeranyl tr... 2e-59 331
D A ?
BET2_YEAST YPT1/SEC4 PROTEINS GERANY... 1.2e-56 325
D A ?
RAM1_YEAST PROTEIN FARNESYLTRANSFERA... 1.3e-53 431
D A ?
PFTB_RAT PROTEIN FARNESYLTRANSFERA... 2.3e-52 437
D A ?
CAL1_YEAST RAS PROTEINS GERANYLGERAN... 2.8e-42 376


SECTION II: MOTIF DIAGRAMS


LinksNameExpect   Motifs
S A ?
RATRABGERB 2e-59

1
3
1
2
S A ?
BET2_YEAST 1.2e-56

2
1
3
1
2
S A ?
RAM1_YEAST 1.3e-53

3
3
3
1
2
S A ?
PFTB_RAT 2.3e-52

1
1
3
1
2
S A ?
CAL1_YEAST 2.8e-42

3
1
2
SCALE
| | | | | | | | | | | | | | | | | |
1 25 50 75 100 125 150 175 200 225 250 275 300 325 350 375 400 425


SECTION III: ANNOTATED SEQUENCES


RATRABGERB
S D ?

Rat rab geranylgeranyl transferase beta-subunit
LENGTH = 331 COMBINED P-VALUE = 4.02e-60 E-VALUE = 2e-59
DIAGRAM: 126-[1]-29-[3]-19-[1]-15-[2]-40

                                                        [1]
                                                        2.1e-09
                                                        QQPEGGFNGRPNKLPDVCYSWWVL
                                                        +++++ + +      ++  ++
76   KSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAV

                                          [3]                                [1]
                                          4.8e-16                            7.6
     GSLPIIGR                             EAHAGYTFCATAALAI                   QQP
     ++++++++                             ++++++++++++++++                   +++
151  ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLP

                                                 [2]
     e-33                                        3.5e-24
     EGGFNGRPNKLPDVCYSWWVLGSLPIIGR               CQDEETGGFSDKPGNMVDFYHT
     +++++++++++++++++++++++++++++               ++++++++++++++++++++++
226  SGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSL



BET2_YEAST
S D ?

YPT1/SEC4 PROTEINS GERANYLGERANYLTRANSFERASE BETA SUBUNIT (EC 2.
LENGTH = 325 COMBINED P-VALUE = 2.34e-57 E-VALUE = 1.2e-56
DIAGRAM: 66-[2]-31-[1]-29-[3]-22-[1]-15-[2]-38
                                                                       [2]
                                                                       1.9e-05
                                                                       CQDEETGGF
                                                                       + + + + +
1    MSGSLTLLKEKHIRYIESLDTNKHNFEYWLTEHLRLNGIYWGLTALCVLDSPETFVKEEVISFVLSCWDDKYGAF

                                                 [1]
                                                 4.3e-09
     SDKPGNMVDFYHT                               QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIG
     +  +  ++ +  +                               +++++ +++     +++   +  ++ + +++
76   APFPRHDAHLLTTLSAVQILATYDALDVLGKDRKVRLISFIRGNQLEDGSFQGDRFGEVDTRFVYTALSALSILG

                                   [3]                                   [1]
                                   4.0e-14                               3.5e-34
     R                             EAHAGYTFCATAALAI                      QQPEGGF
                                   ++++++++ +++++++                      +++++++
151  ELTSEVVDPAVDFVLKCYNFDGGFGLCPNAESHAAQAFTCLGALAIANKLDMLSDDQLEEIGWWLCERQLPEGGL

                                             [2]
                                             6.0e-22
     NGRPNKLPDVCYSWWVLGSLPIIGR               CQDEETGGFSDKPGNMVDFYHT
     +++++++++++++++++++++++++               ++++++++++++++++++++++
226  NGRPSKLPDVCYSWWVLSSLAIIGRLDWINYEKLTEFILKCQDEKKGGISDRPENEVDVFHTVFGVAGLSLMGYD



RAM1_YEAST
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARN
LENGTH = 431 COMBINED P-VALUE = 2.66e-54 E-VALUE = 1.3e-53
DIAGRAM: 153-[3]-37-[3]-33-[3]-20-[1]-19-[2]-67

        [3]                                                  [3]
        2.9e-05                                              7.1e-05
        EAHAGYTFCATAALAI                                     EAHAGYTFCATAALAI
         ++ + ++ +  ++ +                                     +     ++++++   +
151  PGQLSHLASTYAAINALSLCDNIDGCWDRIDRKGIYQWLISLKEPNGGFKTCLEVGEVDTRGIYCALSIATLLNI

                                   [3]                                 [1]
                                   9.0e-19                             2.8e-27
                                   EAHAGYTFCATAALAI                    QQPEGGFNG
                                   ++++++++++++++++                     ++++++++
226  LTEELTEGVLNYLKNCQNYEGGFGSCPHVDEAHGGYTFCATASLAILRSMDQINVEKLLEWSSARQLQEERGFCG

                                               [2]
                                               1.7e-21
     RPNKLPDVCYSWWVLGSLPIIGR                   CQDEETGGFSDKPGNMVDFYHT
     ++++++++++++++++++++++                    ++++++++++++++++++++++
301  RSNKLVDGCYSFWVGGSAAILEAFGYGQCFNKHALRDYILYCCQEKEQPGLRDKPGAHSDFYHTNYCLLGLAVAE



PFTB_RAT
S D ?

PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARNES
LENGTH = 437 COMBINED P-VALUE = 4.62e-53 E-VALUE = 2.3e-52
DIAGRAM: 133-[1]-19-[1]-29-[3]-20-[1]-28-[2]-74

                                                               [1]
                                                               5.4e-09
                                                               QQPEGGFNGRPNKLPDV
                                                               +++++++ + +   +
76   EKHFHYLKRGLRQLTDAYECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPDGGFGGGPGQYPHL

                                       [1]
                                       5.8e-05
     CYSWWVLGSLPIIGR                   QQPEGGFNGRPNKLPDVCYSWWVLGSLPIIGR
       ++   + + +++                     ++++ +       +++  ++  ++ + + +
151  APTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGT

                         [3]                                 [1]
                         2.0e-17                             1.9e-29
                         EAHAGYTFCATAALAI                    QQPEGGFNGRPNKLPDVCY
                         ++++++++++++++++                    +++++++++++++++++++
226  AEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCY

                                              [2]
                                              2.0e-19
     SWWVLGSLPIIGR                            CQDEETGGFSDKPGNMVDFYHT
     ++++++ ++++++                            + +++++++ ++++++++++++
301  SFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH



CAL1_YEAST
S D ?

RAS PROTEINS GERANYLGERANYLTRANSFERASE (EC 2.5.1.-) (PROTEIN GER
LENGTH = 376 COMBINED P-VALUE = 5.69e-43 E-VALUE = 2.8e-42
DIAGRAM: 213-[3]-41-[1]-18-[2]-34

                                                                    [3]
                                                                    2.7e-14
                                                                    EAHAGYTFCATA
                                                                    +++++++ ++++
151  DYKTNCGSSVDSDDLRFCYIAVAILYICGCRSKEDFDEYIDTEKLLGYIMSQQCYNGAFGAHNEPHSGYTSCALS

                                                  [1]
                                                  2.8e-27
     ALAI                                         QQPEGGFNGRPNKLPDVCYSWWVLGSLPII
     ++++                                         ++++++++++++++++++++++++++++++
226  TLALLSSLEKLSDKFKEDTITWLLHRQVSSHGCMKFESELNASYDQSDDGGFQGRENKFADTCYAFWCLNSLHLL

                         [2]
                         3.0e-14
     GR                  CQDEETGGFSDKPGNMVDFYHT
     ++                   +++ +++++ +++++++++++
301  TKDWKMLCQTELVTNYLLDRTQKTLTGGFSKNDEEDADLYHSCLGSAALALIEGKFNGELCIPQEIFNDFSKRCC


Debugging Information



CPU: nbcr2
Time 0.340000 secs.

mast meme.farntrans5.oops.4.sunsparcsolaris.html -stdout


Button Help

E
Links to Entrez database at NCBI
S
Links to sequence scores (section I)
D
Links to motif diagrams (section II)
A
Links to sequence/motif annotated alignments (section III)
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